HsaINT0114893 @ hg19
Intron Retention
Gene
ENSG00000074181 | NOTCH3
Description
notch 3 [Source:HGNC Symbol;Acc:7883]
Coordinates
chr19:15284879-15288901:-
Coord C1 exon
chr19:15288336-15288901
Coord A exon
chr19:15285212-15288335
Coord C2 exon
chr19:15284879-15285211
Length
3124 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGC
5' ss Score
6.39
3' ss Seq
GCCTCACCCTTCCCCACCAGCCC
3' ss Score
6.85
Exon sequences
Seq C1 exon
CCGTTCTGGGGTCCGCGTTGCGAGCGGGTGGCGCGCTCCTGCCGGGAGCTGCAGTGCCCGGTGGGCGTCCCATGCCAGCAGACGCCCCGCGGGCCGCGCTGCGCCTGCCCCCCAGGGTTGTCGGGACCCTCCTGCCGCAGCTTCCCGGGGTCGCCGCCGGGGGCCAGCAACGCCAGCTGCGCGGCCGCCCCCTGTCTCCACGGGGGCTCCTGCCGCCCCGCGCCGCTCGCGCCCTTCTTCCGCTGCGCTTGCGCGCAGGGCTGGACCGGGCCGCGCTGCGAGGCGCCCGCCGCGGCACCCGAGGTCTCGGAGGAGCCGCGGTGCCCGCGCGCCGCCTGCCAGGCCAAGCGCGGGGACCAGCGCTGCGACCGCGAGTGCAACAGCCCAGGCTGCGGCTGGGACGGCGGCGACTGCTCGCTGAGCGTGGGCGACCCCTGGCGGCAATGCGAGGCGCTGCAGTGCTGGCGCCTCTTCAACAACAGCCGCTGCGACCCCGCCTGCAGCTCGCCCGCCTGCCTCTACGACAACTTCGACTGCCACGCCGGTGGCCGCGAGCGCACTTGCAA
Seq A exon
GTGAGCCCATCCACCCGATCGATCCGTCTGTCTATGCATCCATCCCAGTCTGTTTGTCCGTGGGCCCTGCCTCTCTTTCCACCTGCCCATCCACTTGCCCCGTCTGTTTCTCTGTGCACTCTATCTGCCCATCGGTGTGTCCCACGTGTCTGTCCGTGTGTCTGTTCATCCATGTGCTCTGTCTATCTTGTTCTTGTTTCTATCTGCCTATGCACTTCTCTGCCCCGTTTGTCTGCCCTTTTCTCCATCCAATAATTACTTTTTTTTTTTTTTCCCGAGATGGAGTCTTGCTCTGTGGCCCAGGCTAGAGTGCAGTGGCGCGATCTCGGCTCACTGCAACCTCTGCCTCCCGGGTTTAAGCAGTACTCCTGCCTCAGCCTCTGGAGTAGCTGGGATTACAGGTGTGAGCCACCGTGCCCAGCCGAATTCCTTTTTTTTTTTTTTTTTTTTTTTAAGACGGAGTCTCGCTCTCTTGCCCAGACTGGAGTGCAATGGCTCCATCTTGGCTCACTGCAACCTCCGCCTCCCGGGTTCAAGCGATTCTCCTGCCTCAGCCTTCCGAGTAGCTGGGACTACAGGTACCTGCCACCACGCCTGGCTTTTTTTTTGTATTTTTAGTAGAGACAGGGTTTCACCATATTGGCCAGGCTGCTCACGAACTCCTGACCTTGTGATCCGCCCGCCTTGGCCTCCCAAAGTGCTGGGATTACAGGTGTGAGCCACCGCACCTGGCTCCTTTTTTTTTTTTTTTTTTTTTTTTTTAAGACAGGGTCTTGCTCTGTGGCCCAGGCTGGAGTGCAGTGGTGTGATCTTGGCTCAGTGCAATCTCTACCTCCTGGGCTCAAGTAACCCTCACACCTCAGCCTCCCTAGGAGCTGGGACCACAGGTGTGAGCCACCGCGCCCGGGTAACTTTTGTGCTTTTTCTTAGAGATGGGGTTTCGCCATGTTGTCCAGGCTAGTCTTGAACACCTGAGCTCAAAGCAATCCACCCAGCTTAGCCTCTCAAAGTGCTGGGATTGTGGGCCTGAGCCACCACATCTAGCCTAAAAATTCCTTTTATTGGCCGGGCACAGTGCTCACGCCTGTAATCCCAGTACTTTGGGAGGCAGAGGAGGGCAGATCACCTGAGGTCAGGAGTTTGAGCTTGGGCAACATGGTGAAACTCCGTCTCTACTAAAAATACAAAATTAGCCGGGTGTGGTGGCACATGGCTGTAATCCCAGCTACTCAGGAGGCTGAGGCAGGAGAATTGCTTGAACCTGGGAGGTGGAGGATGAGGTGAGCTGAGATCGTGCCATTGCACTCCAGCCTGGGCAGCAAGAGTAAATCTCTGTCTCACCAAAAAAAAAAAAAAAAAAAAAAATTGCTTTTGTTCCTCTGTGTACCCAACTGTCTTCCTCCACTCCTGTTTGTCCATCCTTGGGCCGAATCTGTCCATCCATGCACTCTTTTTGCTCCTCTATATGGCTATCTGTGGGTGCCCCTGACTATCTCTGCCCCTCTTCTGCCCCTCTCTCTGTCTGTCCTAGGCAGTCCATCTGTCCATCCCTACACCCTGCCCCTTCTGTCCTCTGCGTACCTCTCTGTCTGCTTGGAACCCTCCACCCCCTTAATCTCCACATCCTCATCTTCTCTGCTTTCCCCTCACTCACTCTGTTCCAGCCACCCTGGCCTCTCTGCTGTTTCCCAGATACCCCAGGCTTGATCCCATATCAGGGCCTTTGCACAAGCTGTTCCTACTGCCTGGCTGTTCCCTTCCCCCACATGGCTCCTCCCTCACCTCCTTCAAGTCTTTGCTGAAATGGTGGTACCTTCTCAGTGAGCACCTCCCTGGTCACCCCCAGCCCTTCCTCTGCTTTATTTTTCTGCTTAGCATTTAATTCCATCCAGCACTATGTGTGTGCGTGCGTGTGTGTGTGTGTGTGTGTGTGTATATACATATATATACATATATATATATATATATGTATTTTTTTTTTTTTTTTTTTTAGACAGGATTTCTCTCCCATTGCCCAGGCTGGAGTGCAGTGGTGTGATCTTGGCTCACTGCAACCTCCACCTCCTGGGTTCAAGCTATTCTCCTGCCTCAGCTTCCCGAGTAGCTGGGATTACAGGCGCCCGCCACCATGCCTGACTAATTTTTGTATTTTTAGTAGAGACGGGGGTTTCACCATTTTGGCCAGGCTGGCCTAGAACTCCTGACCTCAGGTTATCCGTACACCTTGGCCTCCCAAAGTGCTGGAATTAGAGGCATGAGCCACCGCACCCAGCCTGTATTTTTATTTTATTGATGAGTAATGGAGATGCTGTATATTTGGCTCATGTATCTCCCTTACTATCTGTCTTCACCCAGTGGAATGCCAGCTGCACGTGGACCAGGAATTGTGGCCGGGCCTTATCCTTGTGCCTGCAGCAGTGCCCAACACATGGTAGTCAGTTAGTATTTACTGATTAATTAATAGTTAGCCAGTGAGGCCGGGAGTGTGGTGTGGGTTTGTAGTCCTAGCTACTTGGGAGGCTGAAGAGGGAGGATAATTTGAGTCCAGGAGTTTGAGATTGCAGAGAGCTATGATTGCACCACTGCACTCCGGCGTGGGCAACAGAGCAAGACCCCATTTCAATCAATCAATTTAAAAAAATATTATCAAGGGCTGCGTGCGGTGACTTATGCCTGTGATCCCAGCACTTTGGGAGGCCGAGGCAGGTGGATCACCTGAGGTCAGGAGTTCAACAGCAGCCTGGCCAACATAGTAAAACCCCGTCTCTGCTAAAAATACAAAAATTAGACGGGCGTGGTGGTGCATGCCTGTAATCCCAGCTACTTGGGAGGCTGAGGCGGGAGAATCGCTGGAACCGGGGAGGTGGAGGCTGCAGTGAGCTGAGAGATCATGCTACTGCATTCCGGCCTGGGCGACAGAGCAAGACTCCGTCTCAAAAAAAAAAAAAAAAAATTATCCAGTGAATGGCAAGATTTGCAGAAAGCCTGGCATGGGTCCGTATATTCCAGTCCCCTGTGCAAGCCTTGTCTGGAGTCTCTGTACTCTACGGTGTGAATGCATGGAAGGGGATTGTCTCCTCTGACCCCTGACTCCGCCCCTCTCTGCCTCACCCTTCCCCACCAG
Seq C2 exon
CCCGGTGTACGAGAAGTACTGCGCCGACCACTTTGCCGACGGCCGCTGCGACCAGGGCTGCAACACGGAGGAGTGCGGCTGGGATGGGCTGGATTGTGCCAGCGAGGTGCCGGCCCTGCTGGCCCGCGGCGTGCTGGTGCTCACAGTGCTGCTGCCGCCAGAGGAGCTACTGCGTTCCAGCGCCGACTTTCTGCAGCGGCTCAGCGCCATCCTGCGCACCTCGCTGCGCTTCCGCCTGGACGCGCACGGCCAGGCCATGGTCTTCCCTTACCACCGGCCTAGTCCTGGCTCCGAACCCCGGGCCCGTCGGGAGCTGGCCCCCGAGGTGATCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000074181-NOTCH3:NM_000435:24
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.098
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(13.9=2.6),PF0000822=EGF=WD(100=17.5),PF0006612=Notch=WD(100=19.6),PF0006612=Notch=WD(100=19.6),PF0006612=Notch=PU(15.0=3.2)
A:
NA
C2:
PF0006612=Notch=PD(82.5=29.5),PF068168=NOD=WD(100=50.9),PF076847=NODP=PU(4.6=2.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)